Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

51

Sequences:

679

Seq/Len:

13.31

HH_delta:

0.86 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

33_M

41_I

0.80995

3.565

21_G

49_R

0.60829

2.677

35_D

38_R

0.43342

1.908

42_L

45_L

0.41712

1.836

6_G

9_K

0.41303

1.818

10_L

27_I

0.39019

1.717

40_A

43_A

0.37768

1.662

29_D

37_E

0.36492

1.606

9_K

18_R

0.34774

1.531

6_G

10_L

0.28478

1.253

22_R

30_W

0.2769

1.219

28_R

31_K

0.27673

1.218

34_S

37_E

0.26051

1.147

2_S

24_L

0.25028

1.102

33_M

37_E

0.24811

1.092

37_E

40_A

0.24021

1.057

38_R

47_A

0.24018

1.057

3_P

8_C

0.2372

1.044

29_D

33_M

0.23373

1.029

29_D

32_S

0.22975

1.011

37_E

44_R

0.22788

1.003

6_G

24_L

0.22465

0.989

39_R

43_A

0.22196

0.977

33_M

45_L

0.2181

0.960

31_K

49_R

0.21444

0.944

18_R

29_D

0.21029

0.926

44_R

47_A

0.20932

0.921

25_D

32_S

0.20842

0.917

24_L

31_K

0.20804

0.916

39_R

49_R

0.20803

0.916

32_S

43_A

0.20145

0.887

21_G

45_L

0.20061

0.883

10_L

18_R

0.1993

0.877

1_P

35_D

0.19545

0.860

2_S

28_R

0.19172

0.844

2_S

25_D

0.19168

0.844

31_K

35_D

0.19055

0.839

12_P

21_G

0.19054

0.839

38_R

46_R

0.18651

0.821

22_R

27_I

0.18471

0.813

32_S

37_E

0.18457

0.812

5_I

18_R

0.18354

0.808

10_L

24_L

0.17944

0.790

24_L

27_I

0.17921

0.789

6_G

18_R

0.17913

0.788

43_A

47_A

0.17798

0.783

1_P

6_G

0.17786

0.783

4_C

8_C

0.17778

0.782

12_P

36_D

0.17669

0.778

10_L

14_D

0.17406

0.766

32_S

40_A

0.17323

0.762

16_V

37_E

0.17207

0.757

5_I

49_R

0.16975

0.747

10_L

31_K

0.16919

0.745

22_R

26_E

0.16908

0.744

12_P

46_R

0.16873

0.743

36_D

40_A

0.16784

0.739

29_D

40_A

0.16387

0.721

17_C

30_W

0.16383

0.721

1_P

39_R

0.16347

0.719

11_D

48_R

0.16213

0.714

8_C

17_C

0.15975

0.703

30_W

41_I

0.15826

0.697

26_E

30_W

0.15744

0.693

27_I

31_K

0.15684

0.690

7_V

24_L

0.15553

0.685

5_I

43_A

0.15431

0.679

24_L

28_R

0.15431

0.679

2_S

42_L

0.15331

0.675

38_R

42_L

0.15176

0.668

2_S

37_E

0.15121

0.666

44_R

48_R

0.14827

0.653

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)